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Fusion gene ID: 26060 |
FusionGeneSummary for PATL1_TECTA |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: PATL1_TECTA | Fusion gene ID: 26060 | Hgene | Tgene | Gene symbol | PATL1 | TECTA | Gene ID | 219988 | 7007 |
| Gene name | PAT1 homolog 1, processing body mRNA decay factor | tectorin alpha | |
| Synonyms | Pat1b|hPat1b | DFNA12|DFNA8|DFNB21 | |
| Cytomap | 11q12.1 | 11q23.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein PAT1 homolog 1PAT1-like protein 1protein PAT1 homolog bprotein associated with topoisomerase II homolog 1 | alpha-tectorin | |
| Modification date | 20180523 | 20180522 | |
| UniProtAcc | Q86TB9 | O75443 | |
| Ensembl transtripts involved in fusion gene | ENST00000300146, | ENST00000392793, ENST00000264037, ENST00000478058, | |
| Fusion gene scores | * DoF score | 1 X 1 X 1=1 | 4 X 2 X 5=40 |
| # samples | 1 | 5 | |
| ** MAII score | log2(1/1*10)=3.32192809488736 | log2(5/40*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: PATL1 [Title/Abstract] AND TECTA [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | PATL1 | GO:0000290 | deadenylation-dependent decapping of nuclear-transcribed mRNA | 20584987|20852261 |
| Hgene | PATL1 | GO:0033962 | cytoplasmic mRNA processing body assembly | 20584987 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | RV | GBM | TCGA-26-5132-01A | PATL1 | chr11 | 59434326 | - | TECTA | chr11 | 121058541 | + |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000300146 | ENST00000392793 | PATL1 | chr11 | 59434326 | - | TECTA | chr11 | 121058541 | + |
| Frame-shift | ENST00000300146 | ENST00000264037 | PATL1 | chr11 | 59434326 | - | TECTA | chr11 | 121058541 | + |
| 5CDS-intron | ENST00000300146 | ENST00000478058 | PATL1 | chr11 | 59434326 | - | TECTA | chr11 | 121058541 | + |
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FusionProtFeatures for PATL1_TECTA |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| PATL1 | TECTA |
| RNA-binding protein involved in deadenylation-dependentdecapping of mRNAs, leading to the degradation of mRNAs. Acts as ascaffold protein that connects deadenylation and decappingmachinery. Required for cytoplasmic mRNA processing body (P-body)assembly. In case of infection, required for translation andreplication of hepatitis C virus (HCV).{ECO:0000269|PubMed:17936923, ECO:0000269|PubMed:19628699,ECO:0000269|PubMed:20543818, ECO:0000269|PubMed:20584987,ECO:0000269|PubMed:20852261}. | One of the major non-collagenous components of thetectorial membrane (By similarity). The tectorial membrane is anextracellular matrix of the inner ear that covers theneuroepithelium of the cochlea and contacts the stereociliabundles of specialized sensory hair cells. Sound induces movementof these hair cells relative to the tectorial membrane, deflectsthe stereocilia and leads to fluctuations in hair-cell membranepotential, transducing sound into electrical signals.{ECO:0000250}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at . * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for PATL1_TECTA |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for PATL1_TECTA |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| PATL1 | ELAVL1, APP, PRPF3, LSM1, PRPF4, SART1, KLC2, SF3A1, PHF20, TARDBP, WWOX, DDX6, FHL3, GOLGA2, PSMA3, QPRT, NTRK1, CDC37, TOP2A, XPO1, DCP1A, LSM6, LSM5, IGHM, LRFN4, NAGK, MYO18A | TECTA |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for PATL1_TECTA |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for PATL1_TECTA |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | TECTA | C1832187 | Deafness, Autosomal Dominant 12 | 8 | CTD_human;UNIPROT |
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